Posted by
Michael Schmid on
URL: http://imagej.273.s1.nabble.com/Roi-Enlarge-without-merging-ROI-merging-Edges-to-ROI-conversion-tp3693456p3693461.html
Hi Ghislain,
actually there is a seeded watershed in ImageJ - it is hidden in
"Find Maxima".
So, initially following Gabriel's suggestion you can
(1) create a mask from the roi (Edit>Selection>Create Mask)
(2) duplicate it
(3) run Filters>maximum to enlarge it
(4) copy it and paste it to the mask
(5) select "Blend" in "Edit>Paste Control.
(Image Calculator > Average is an alternative to steps 5&6)
This will give you particles with the core at value 255 and the
enlarged rim at 127.
(6) Binary>Find Maxima with "light background", any tolerance below
127 and output type "Segmented Particles" should do it.
- Convert edges to a roi:
if the edges form closed loops, you can use Analyze Particles with
"Include Holes" to fill the interior.
Fusing rois: I am not aware of such a tool, it looks like a task for
a macro examining the Results table. Some simple operations might be
done by running "Analyze Particles" with different settings
(circularity) and combining the images created.
Michael
________________________________________________________________
On 26 Nov 2008, at 03:06, Ghislain Bonamy wrote:
> I have seen a couple Threads in regards to modifying ROI. However,
> I do not
> believe that any of them solves my problem. Resizing ROI to a
> smaller size
> than there original size is not too hard. However enlarging them,
> while
> preserving a correct delimitation (not fusing the particle) is a
> different
> story.
>
> I believe the easiest solution would be to use a seeded watershed
> algorithm.
> Unfortunately, I cannot seem to find any plugins for that. If you
> have any
> plugins that may do this I would much appreciate.
>
> I am also interested in a tool to fuse ROI based on there properties
> (circularity, perimeter in common, fluorescence in different channels,
> distance, size...).
>
> On another topic, does anyone have a way to convert edges to an ROI
> (this
> would probably need a way to provide a seed and to close edges)?
>
> Thanks in adavance.
>
>
>
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> tp1579237p1579237.html
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